RnoINT0068919 @ rn6
Intron Retention
Gene
ENSRNOG00000016659 | Habp2
Description
hyaluronan binding protein 2 [Source:RGD Symbol;Acc:1302979]
Coordinates
chr1:277095617-277096897:+
Coord C1 exon
chr1:277095617-277095788
Coord A exon
chr1:277095789-277096799
Coord C2 exon
chr1:277096800-277096897
Length
1011 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
ACTTTAATTTTGTGTTTTAGAAA
3' ss Score
10.64
Exon sequences
Seq C1 exon
GTCCGGACGACTGTTATGTCGGTGATGGCTACTCTTACCGAGGCAAAGTGAGTAGGACAGTCAACCAGAACCCATGCCTTTACTGGAACTCCCACCTCCTCTTGCAGGAGAATTACAACATGTTTATGGAGGATGCCGAGACCCATGGGATCGCAGATCACAACTTCTGCAG
Seq A exon
GTACAAATTACAGCCTCCTGTAGGTCCCGTCTTGGTTGCTTGATTTTTGAAACTCATCACAAGTCAGTAGCCTTCTCTCTGAACAGGAAGTCATCCTACTCAGGACAACCTAACAACAACCCCCCTCCCTAAACTCAGGGTCTTGTGACATCGACGTTCACTTCTTATTAATGTGTTCTACATGTGTCATGTGGGTGGGACGGTGATGGTGGGAGTTCAGCACCACAGAGTTTTACAAATACTCAGGAAGTGTAAAAAGAGAAAAAAATGAGGCAAAAAAAAAGACAACCAAAAATCAAGAAATGACGCATTACTTTCCACATGAGGACTGTGATTCTGTGGCAAAGGTAGTCATGTGGGTCCACTTGCCATCAAGAGAGAGGCTGAGAAGAAAATGGACTAGACTTCCCTAGTCTTCTGTCTCCAGACAACGCTCCTGGTTTCCTCCAGCTACCTTTAGTCTAACCAAGGTCACTAACTTGGGTGATTTGCTCACAGGAAGTTGGGTGTTCTGCTTGCCTTTGCACTGGCCCCACGAGCAAGGGTGTCTTCCTTGCACACGAAAGCCTACCTCTGTTCCCCTAATGCTCAGTGAGAGCTGCCTTCTTGTGGGGCTATCTTCATGGAGAAAGCCTTTGACTACTTCCCAAAGGATTCTCATGCCTGGGACTCAGAGGTTGGGGCCAGCTCTCACCATGTCTGTCTATCTGTCTGTCACACTTTCCTAAACACATCTTCAGTAGGAACCTTGATACTCTCATATTTCATGTTTCCCATGGTCCATCACAAAAGTTGGACACTACTTTCTGGTCCCCAGGATGTTCCTCCTGAGGTTAAGACTTTGCCAAAATCTGCGAGCATGCTCCATATGCTGAGGTTTGCTCTGTCGGGGGGTTCCAGTGAAGAACAGTCCTAGGCTGTGTGGAACTGGATATCCTCTCACTCAAGGTGCTTCTGTGATGCAAAGGCCTCCCAGCCTTGATGGTCAGTCACTTTAATTTTGTGTTTTAG
Seq C2 exon
AAACCCAGATGGAGACCACAAGCCGTGGTGTTTCGTTAAGGTGAACAGTGAGAAGGTGAAATGGGAGTATTGTAATGTCGAGGTCTGCCCAGAGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016659:ENSRNOT00000022382:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(63.9=91.4)
A:
NA
C2:
PF0005113=Kringle=PD(34.9=85.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCGGACGACTGTTATGTC
R:
CGGACTCTGGGCAGACCTC
Band lengths:
270-1281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]